| UXAA 100-495 |
| ID: | 1423482063 |
Query Sequence |
Download Alignment We filter this alignment to remove positions that have > 75% gaps before running GREMLIN. |
| Length: | 396 (392) | ||
| Sequences: | 1507 (884.8) | ||
| Seq/Len: | 3.844 | ||
| Nf(neff/√len): | 44.7 |
Jackhmmer Results: (2015_01_07)
Sequences per length for each position, BEFORE the coverage/gap filter was applied
Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 3.844).
Sequences per length for each position, AFTER the coverage/gap filter was applied
Residue pairs sorted by coevolution strength:
Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.
| i | j | Scaled score | Prob |
| 370_E | 375_K | 4.829 | 1.00 |
| 13_R | 158_E | 4.051 | 1.00 |
| 10_Q | 153_P | 3.882 | 1.00 |
| 180_L | 314_S | 3.684 | 1.00 |
| 184_S | 194_T | 3.334 | 1.00 |
| 13_R | 152_E | 3.182 | 1.00 |
| 156_L | 369_V | 3.156 | 1.00 |
| 215_D | 218_T | 3.008 | 1.00 |
| 216_E | 220_E | 2.967 | 1.00 |
| 346_F | 364_F | 2.894 | 1.00 |
| 179_M | 364_F | 2.800 | 1.00 |
| 13_R | 154_G | 2.798 | 1.00 |
| 195_V | 308_C | 2.782 | 1.00 |
| 220_E | 224_T | 2.559 | 1.00 |
| 41_I | 135_G | 2.435 | 1.00 |
| 91_G | 146_M | 2.431 | 1.00 |
| 158_E | 285_P | 2.406 | 1.00 |
| 367_T | 375_K | 2.387 | 1.00 |
| 292_A | 306_A | 2.382 | 1.00 |
| 350_Q | 363_E | 2.375 | 1.00 |
| 378_C | 381_R | 2.375 | 1.00 |
| 347_D | 353_H | 2.275 | 1.00 |
| 19_V | 154_G | 2.237 | 1.00 |
| 221_K | 274_D | 2.191 | 1.00 |
| 366_D | 370_E | 2.152 | 1.00 |
| 193_T | 288_N | 2.131 | 1.00 |
| 12_Y | 20_G | 2.125 | 1.00 |
| 231_Q | 235_A | 2.096 | 1.00 |
| 186_Y | 362_E | 2.042 | 1.00 |
| 328_V | 371_F | 2.020 | 1.00 |
| 304_A | 325_V | 2.012 | 1.00 |
| 312_L | 330_I | 2.000 | 1.00 |
| 187_V | 192_G | 1.987 | 1.00 |
| 334_S | 338_A | 1.968 | 1.00 |
| 214_R | 273_V | 1.949 | 1.00 |
| 8_E | 153_P | 1.881 | 1.00 |
| 134_A | 137_E | 1.856 | 1.00 |
| 54_G | 147_R | 1.855 | 1.00 |
| 189_A | 270_S | 1.845 | 1.00 |
| 26_W | 90_A | 1.838 | 1.00 |
| 7_R | 366_D | 1.835 | 1.00 |
| 331_A | 344_I | 1.823 | 1.00 |
| 33_C | 67_C | 1.800 | 0.99 |
| 21_V | 309_H | 1.797 | 0.99 |
| 38_A | 96_I | 1.791 | 0.99 |
| 351_L | 357_M | 1.786 | 0.99 |
| 45_F | 136_I | 1.783 | 0.99 |
| 154_G | 158_E | 1.777 | 0.99 |
| 214_R | 271_V | 1.777 | 0.99 |
| 92_A | 142_L | 1.769 | 0.99 |
| 360_L | 363_E | 1.731 | 0.99 |
| 273_V | 284_T | 1.699 | 0.99 |
| 213_C | 222_L | 1.683 | 0.99 |
| 179_M | 346_F | 1.675 | 0.99 |
| 334_S | 349_G | 1.654 | 0.99 |
| 121_H | 141_Q | 1.654 | 0.99 |
| 334_S | 347_D | 1.651 | 0.99 |
| 67_C | 100_C | 1.650 | 0.99 |
| 182_R | 358_P | 1.646 | 0.99 |
| 33_C | 100_C | 1.646 | 0.99 |
| 145_V | 148_N | 1.642 | 0.99 |
| 304_A | 323_G | 1.635 | 0.99 |
| 162_G | 311_V | 1.624 | 0.99 |
| 335_E | 338_A | 1.621 | 0.99 |
| 347_D | 350_Q | 1.613 | 0.99 |
| 214_R | 284_T | 1.611 | 0.99 |
| 356_A | 359_Q | 1.608 | 0.98 |
| 22_R | 380_E | 1.603 | 0.98 |
| 179_M | 351_L | 1.597 | 0.98 |
| 128_Q | 134_A | 1.582 | 0.98 |
| 337_A | 344_I | 1.548 | 0.98 |
| 7_R | 369_V | 1.529 | 0.98 |
| 330_I | 348_A | 1.528 | 0.98 |
| 25_L | 139_L | 1.507 | 0.97 |
| 276_L | 288_N | 1.504 | 0.97 |
| 183_F | 368_I | 1.504 | 0.97 |
| 367_T | 370_E | 1.494 | 0.97 |
| 350_Q | 360_L | 1.488 | 0.97 |
| 29_P | 38_A | 1.471 | 0.97 |
| 98_L | 126_Q | 1.467 | 0.97 |
| 85_V | 108_F | 1.451 | 0.97 |
| 161_F | 183_F | 1.449 | 0.97 |
| 133_E | 137_E | 1.448 | 0.97 |
| 227_N | 230_K | 1.434 | 0.96 |
| 300_T | 323_G | 1.427 | 0.96 |
| 183_F | 364_F | 1.421 | 0.96 |
| 41_I | 132_I | 1.417 | 0.96 |
| 145_V | 149_D | 1.398 | 0.96 |
| 182_R | 357_M | 1.387 | 0.95 |
| 297_A | 321_Y | 1.382 | 0.95 |
| 25_L | 146_M | 1.373 | 0.95 |
| 44_R | 136_I | 1.371 | 0.95 |
| 179_M | 361_L | 1.370 | 0.95 |
| 128_Q | 131_E | 1.370 | 0.95 |
| 331_A | 337_A | 1.368 | 0.95 |
| 21_V | 310_M | 1.366 | 0.95 |
| 328_V | 367_T | 1.358 | 0.95 |
| 388_A | 395_T | 1.346 | 0.94 |
| 367_T | 371_F | 1.339 | 0.94 |
| 274_D | 288_N | 1.312 | 0.93 |
| 348_A | 360_L | 1.304 | 0.93 |
| 123_M | 131_E | 1.303 | 0.93 |
| 186_Y | 365_I | 1.299 | 0.93 |
| 41_I | 96_I | 1.294 | 0.92 |
| 43_N | 46_L | 1.293 | 0.92 |
| 33_C | 126_Q | 1.292 | 0.92 |
| 18_D | 281_R | 1.290 | 0.92 |
| 159_L | 372_A | 1.286 | 0.92 |
| 100_C | 126_Q | 1.286 | 0.92 |
| 183_F | 187_V | 1.282 | 0.92 |
| 195_V | 282_L | 1.281 | 0.92 |
| 164_E | 197_T | 1.280 | 0.92 |
| 338_A | 341_K | 1.280 | 0.92 |
| 67_C | 126_Q | 1.273 | 0.92 |
| 87_H | 309_H | 1.264 | 0.91 |
| 335_E | 339_K | 1.264 | 0.91 |
| 362_E | 366_D | 1.257 | 0.91 |
| 274_D | 284_T | 1.252 | 0.91 |
| 214_R | 218_T | 1.251 | 0.91 |
| 346_F | 367_T | 1.231 | 0.90 |
| 186_Y | 361_L | 1.231 | 0.90 |
| 164_E | 303_L | 1.228 | 0.90 |
| 8_E | 155_K | 1.221 | 0.89 |
| 9_V | 19_V | 1.220 | 0.89 |
| 130_D | 133_E | 1.215 | 0.89 |
| 337_A | 347_D | 1.211 | 0.89 |
| 134_A | 138_H | 1.209 | 0.89 |
| 86_R | 281_R | 1.198 | 0.88 |
| 197_T | 303_L | 1.194 | 0.88 |
| 310_M | 368_I | 1.192 | 0.88 |
| 331_A | 336_L | 1.190 | 0.88 |
| 85_V | 95_V | 1.176 | 0.87 |
| 221_K | 280_E | 1.171 | 0.86 |
| 231_Q | 234_I | 1.158 | 0.86 |
| 222_L | 289_L | 1.153 | 0.85 |
| 190_N | 365_I | 1.153 | 0.85 |
| 224_T | 228_D | 1.152 | 0.85 |
| 208_L | 261_L | 1.151 | 0.85 |
| 15_A | 116_D | 1.144 | 0.85 |
| 216_E | 219_F | 1.137 | 0.84 |
| 156_L | 365_I | 1.133 | 0.84 |
| 7_R | 365_I | 1.130 | 0.84 |
| 337_A | 341_K | 1.128 | 0.84 |
| 25_L | 143_Y | 1.123 | 0.83 |
| 78_R | 103_N | 1.120 | 0.83 |
| 341_K | 378_C | 1.117 | 0.83 |
| 7_R | 156_L | 1.114 | 0.83 |
| 168_S | 253_I | 1.109 | 0.82 |
| 323_G | 327_T | 1.107 | 0.82 |
| 357_M | 361_L | 1.101 | 0.81 |
| 217_A | 221_K | 1.099 | 0.81 |
| 292_A | 302_A | 1.098 | 0.81 |
| 155_K | 158_E | 1.097 | 0.81 |
| 10_Q | 375_K | 1.096 | 0.81 |
| 240_I | 396_L | 1.096 | 0.81 |
| 94_L | 138_H | 1.095 | 0.81 |
| 351_L | 360_L | 1.090 | 0.81 |
| 179_M | 183_F | 1.088 | 0.80 |
| 68_S | 102_N | 1.087 | 0.80 |
| 33_C | 98_L | 1.084 | 0.80 |
| 30_T | 97_G | 1.083 | 0.80 |
| 143_Y | 147_R | 1.082 | 0.80 |
| 138_H | 141_Q | 1.077 | 0.79 |
| 164_E | 300_T | 1.067 | 0.79 |
| 67_C | 98_L | 1.064 | 0.78 |
| 77_T | 389_I | 1.059 | 0.78 |
| 277_R | 280_E | 1.054 | 0.77 |
| 162_G | 184_S | 1.052 | 0.77 |
| 25_L | 42_Q | 1.048 | 0.77 |
| 9_V | 373_N | 1.047 | 0.77 |
| 161_F | 310_M | 1.045 | 0.77 |
| 350_Q | 355_K | 1.045 | 0.77 |
| 152_E | 158_E | 1.044 | 0.76 |
| 9_V | 159_L | 1.042 | 0.76 |
| 10_Q | 13_R | 1.035 | 0.76 |
| 272_V | 289_L | 1.034 | 0.75 |
| 10_Q | 150_K | 1.025 | 0.75 |
| 205_A | 264_T | 1.022 | 0.74 |
| 163_L | 196_L | 1.020 | 0.74 |
| 24_E | 57_G | 1.020 | 0.74 |
| 247_G | 296_D | 1.012 | 0.73 |
| 124_I | 127_Q | 1.009 | 0.73 |
| 31_V | 67_C | 1.007 | 0.73 |
| 68_S | 246_P | 1.005 | 0.73 |
| 39_R | 62_S | 1.003 | 0.72 |
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
- Text file of contact predictions (all 3L/2 predictions)
- Generate restraints for ROSETTA Structure Modeling
- Import to GREMLIN BETA - features includes ability to upload PDB and latest P(contact) calculation based on eLife 2015 fitting to PDB data.
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
| PDB | M | Cov | P(%) | HHΔ | |
| 2csuA | 2 | 0.3561 | 40.8 | 0.978 | Contact Map |
| 2m6rA | 1 | 0.3131 | 32.2 | 0.979 | Contact Map |
| 2fp4B | 1 | 0.3535 | 30.5 | 0.979 | Contact Map |
| 1fmtA | 2 | 0.2525 | 22 | 0.981 | Contact Map |
| 5nulA | 1 | 0.303 | 20.3 | 0.981 | Contact Map |
| 2hnaA | 1 | 0.3131 | 18.3 | 0.981 | Contact Map |
| 3tqqA | 1 | 0.2449 | 17.8 | 0.982 | Contact Map |
| 2blnA | 2 | 0.25 | 16.3 | 0.982 | Contact Map |
| 3q0iA | 1 | 0.2449 | 16 | 0.982 | Contact Map |
| 1ykgA | 1 | 0.3106 | 15.8 | 0.982 | Contact Map |
Cov = coverage of hit
P(%) = probability
Sequence Conservation (Image Generated using WebLogo v3)